Comments (1)
The depth file provided for plot_depth.py is generated by GCI which is in a fasta-like format (and gzipped):
>chromosome_id
0
1
2
3
...
And if you only need to use plot_depth.py with your customed depth file (such as the outputs from samtools depth
), you can convert that into this format. And I will provide a script for that later (you would see it in the directory utility
). Could you show me the format of your depth file?
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Related Issues (10)
- can you make the depth plot a stand-alone function? HOT 2
- Why not use illumina reads? HOT 1
- only for one chromosome HOT 3
- Uniform window size for visualization HOT 3
- issues for specific region HOT 3
- a summarized GCI score for multiple specific regions HOT 1
- dealing with pacbiohifi HOT 12
- Curated contigs number can be zero ,even less than 1 HOT 1
- Killed the command HOT 1
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